Variant report

Variant	rs562010
Chromosome Location	chr6:69464771-69464772
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:69460973..69463599-chr6:69463618..69467509,4	K562	blood:
2	chr6:69457273..69460915-chr6:69461599..69464794,3	K562	blood:

Extended variants
information (count: 76 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs10945140	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];0.81[YRI][hapmap];0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11965496	0.85[EUR][1000 genomes]
rs1357618	0.95[CEU][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.85[EUR][1000 genomes]
rs1357619	0.83[JPT][hapmap]
rs1403927	0.86[CHD][hapmap];1.00[JPT][hapmap]
rs1523937	0.95[CEU][hapmap];0.81[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.97[TSI][hapmap];0.85[EUR][1000 genomes]
rs1523941	0.85[EUR][1000 genomes]
rs1523947	0.89[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.88[TSI][hapmap]
rs1523948	0.85[CEU][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];0.94[MEX][hapmap];0.94[TSI][hapmap]
rs1983623	0.80[ASW][hapmap];0.89[CEU][hapmap];0.89[GIH][hapmap];0.85[JPT][hapmap];0.81[TSI][hapmap];0.88[EUR][1000 genomes]
rs2024562	1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.84[TSI][hapmap];0.98[ASN][1000 genomes]
rs2064389	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.80[TSI][hapmap];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2140510	0.85[CEU][hapmap];1.00[JPT][hapmap]
rs2177448	0.85[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.88[TSI][hapmap]
rs2204285	0.81[CEU][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.85[EUR][1000 genomes]
rs2206834	1.00[JPT][hapmap]
rs2206836	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2223724	0.80[CEU][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.94[TSI][hapmap]
rs2257875	0.88[EUR][1000 genomes]
rs2585601	0.89[CEU][hapmap];0.84[JPT][hapmap];0.87[EUR][1000 genomes]
rs2585603	0.89[CEU][hapmap];0.85[JPT][hapmap];0.88[EUR][1000 genomes]
rs2746128	0.80[ASW][hapmap];0.89[CEU][hapmap];0.89[GIH][hapmap];0.85[JPT][hapmap];0.85[MKK][hapmap];0.81[TSI][hapmap];0.88[EUR][1000 genomes]
rs2746133	0.85[JPT][hapmap]
rs4434435	0.82[EUR][1000 genomes]
rs4708243	0.83[JPT][hapmap]
rs644877	0.80[EUR][1000 genomes]
rs6455295	1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs6455296	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs6455298	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs6455299	0.85[EUR][1000 genomes]
rs6455302	1.00[JPT][hapmap]
rs6455303	1.00[JPT][hapmap]
rs6911395	0.82[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.88[TSI][hapmap]
rs6919103	0.85[EUR][1000 genomes]
rs6920537	0.95[CEU][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.97[TSI][hapmap];0.85[EUR][1000 genomes]
rs6928142	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6929378	1.00[JPT][hapmap]
rs6932940	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs7738131	0.83[EUR][1000 genomes]
rs7738291	0.88[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs7739996	0.95[ASN][1000 genomes]
rs7743793	0.98[ASN][1000 genomes]
rs7746943	0.87[GIH][hapmap]
rs7747313	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7747314	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7754795	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs7755356	0.85[CEU][hapmap];1.00[JPT][hapmap]
rs7758017	0.85[EUR][1000 genomes]
rs7765583	0.84[EUR][1000 genomes]
rs7769724	0.95[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs7771494	0.85[EUR][1000 genomes]
rs7773117	0.84[EUR][1000 genomes]
rs7775093	0.85[EUR][1000 genomes]
rs9294806	1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[ASN][1000 genomes]
rs9294807	0.94[CEU][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs9294810	0.85[CEU][hapmap];1.00[JPT][hapmap]
rs9294811	1.00[JPT][hapmap]
rs9346239	1.00[JPT][hapmap]
rs9346240	0.86[CHD][hapmap];0.92[JPT][hapmap]
rs9346243	1.00[JPT][hapmap]
rs9346245	1.00[JPT][hapmap]
rs9346246	0.82[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap]
rs9354796	0.95[ASN][1000 genomes]
rs9360357	0.83[JPT][hapmap]
rs9360360	0.85[EUR][1000 genomes]
rs9360361	0.95[CEU][hapmap];0.82[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.97[TSI][hapmap];0.85[EUR][1000 genomes]
rs9363961	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9363963	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.81[TSI][hapmap];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9446057	0.95[CEU][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.85[EUR][1000 genomes]
rs9446058	0.95[CEU][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs9454611	0.98[ASN][1000 genomes]
rs9454616	0.95[CEU][hapmap];0.82[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.97[TSI][hapmap];0.85[EUR][1000 genomes]
rs9454621	0.81[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.94[TSI][hapmap]
rs9454622	0.94[CEU][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs992784	0.92[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv886130	chr6:68950298-69531957	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs562010	BAI3	cis	cerebellum	SCAN

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:69452600-69464800	Weak transcription	Fetal Lung	lung
2	chr6:69457400-69466000	Weak transcription	Fetal Brain Female	brain
3	chr6:69457400-69466400	Weak transcription	Brain Anterior Caudate	brain
4	chr6:69461000-69465400	Weak transcription	Brain Angular Gyrus	brain
5	chr6:69461200-69465000	Weak transcription	Brain Cingulate Gyrus	brain
6	chr6:69463400-69470800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr6:69464000-69469000	Enhancers	Brain Substantia Nigra	brain
8	chr6:69464600-69465400	Enhancers	Brain Inferior Temporal Lobe	brain
9	chr6:69464600-69465600	Enhancers	K562	blood
10	chr6:69464600-69465800	Enhancers	Brain Hippocampus Middle	brain
11	chr6:69464600-69468000	Enhancers	Primary monocytes fromperipheralblood	blood

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